CLUSTAL W --- LocARNA 1.4.8 - Local Alignment of RNA


DroEre_CAF1_left   AATTATTAATTTACTTTCATAACAGAAAGAACTGATTTCTT-TTGAGCTACCGC-TTCAATGCAGTTCACATTAGCACATTTT--TAA---CTTTGATTGCTTTGGATTTCGTTTCAT-T
DroGri_CAF1_left   ATAAATTGAAT-ATGTCTAAGCCCGTTATCAAGTTTTTT-A-CGGCTCAATTAA-CACAATTAAGA-------AGCATGCTTG--GAA---TACGGAGCGA---GAAAAGCTTTCGGTTT
DroMel_CAF1_left   A-TTATTAATTTACTTTCATAAGAGATAGAATTGATTTCGT-TTGAGCTACCGGATTCAATGCAGTTTACATTAGCACATTTT--TAA---CTTTGAAAGTTTCGGATTTCGTTTCATTT
DroSec_CAF1_left   AATTATTAATTTACTTTTATAAGAGAAAGAATTTATTTCGT-TTGAGCTACCGA-TTCAATGCAGTTCACATTAGCACATTTT--TAA---CTTTGATTGTTTCGGATTTCGTTTCACTT
DroSim_CAF1_left   AATTATTAATTTACTTTCATAAGAGAAAGAATTGATTTCGT-TTGAGCTACCGA-TTCAATGCAGTTCACATTAGCACGTTTT--TAA---CTTTGATTGTTTTGGATTTCGTTTCATTT
DroYak_CAF1_left   AATTATTAATTTACTTTCATATCAGCAAGAATTGAATTCCT-TTGAGCTACCGC-ATCAATGCAGTTCACATTAGCACATTTT--CAG---CTTAGATTCATTTGGATTTTGTTTCAT-T
DroMoj_CAF1_left   ACACACGAATAAACCCGTTTACAAGTTTT------TGTCGTGGCGTTTTGCTTC-T---TTTT----TACGGCTCAATTAACA--CAATT-AGGAATAAGGCGAAAAGCTTTCAGTT--G
DroVir_CAF1_left   TCACGCACAAAAAAAATGTTTAAACCCGT------TTACAA-GTTTTTTACGGC-T---CAAT----TAA--CACAATTAAGAAGCATGTCTAGAATACGAAGAGAAGCTTTCATTT--G

DroEre_CAF1_left   CGGATGTTTTATTCTCGCACCATAGATGCCACTAAGAGATCACGGGTTGT-ATCAAAAGTACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATCTATACACCATCAGAT-GGC
DroGri_CAF1_left   CTGCACGTAATATCCCGCACCATAGATGCCACTAAGAGATCACGGGC-GT-GTTAAAATAACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATGCA-GAACAACAAGAA-AAA
DroMel_CAF1_left   TGGATGTTTTATTCTCGCACCATAGATGCCACTAAGAGATCACGGGTTGT-ATAAAAATTACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATCTATATACCATTAGAT-GGT
DroSec_CAF1_left   TGGATGTTTTATTCTCGCACCATAGATGCCACTAAGAGATCACGGGTTGT-ATAAAAATTACCCCGTGAATTCTTCCAGTGCCATTAACTGTGTCGAGATCTATATACCATTAGAA-GGT
DroSim_CAF1_left   TGGATGTTTTATTCTCGCACCATAGATGCCACTAAGAGATCACGGGTTGT-ATAAAAATTACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATCTATATACCATTAGAT-GGT
DroYak_CAF1_left   TGGATGTTTTATTCTCGCACCATAGATGCCACTAAGAGATCACGGGTTGT-ATAAAAAGTACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATCTATATACCAGCAGCT-GGT
DroMoj_CAF1_left   TTGAACGTAATATCCCGCACCATAGATGCCACTAAGAGATCACGGGC-GTGTTAGAAAA-ACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATG-CGAAACAACGAAAA-CAA
DroVir_CAF1_left   TTGTACGTAATATCCCGCACCATAGATGCCACTAAGAGATCACGGGC-GTGTTATAAAA-ACCCCGTGAATTCTTCCAGTGCCATTAACTGTGCCGAGATG-CAGAGCAAGCAACATTAA

DroEre_CAF1_left   ATATTTACT--TTTTTTGTTGTATCACTTTTAATTG-GTAAACTCACCTGCATGCATGGGATGCCCTTCAAATCTTCAG-TTTC--------CA
DroGri_CAF1_left   TCACTTGAA--AAAAATAACTTACCCAGCAGAAATT-CAGGTAGCAACTTCATTTTTTATTGGCAATTGAAAGATCTAGCTCAC--------GT
DroMel_CAF1_left   ATATTTACT--TTTCTTGTTTTGTCAGTTTAAATTG-GATTACTCACCCGCATGCACTGGATACCCTTTAAATCTTCAT-TTAG--------TT
DroSec_CAF1_left   AT----------TCCTTGTTTTGTCACTTTAAATTG-GATTACTCACCTGCATGCATTGGAAGCTCTTCAAATCTTCAT-TTAGTTTATGAAAT
DroSim_CAF1_left   ATATTTTCT--TTTCTTCTTTTGTCACTTTAAATTG-GATTACTCACCTGCATGCATTGGAAACTCTTCAAATCTTCAT-TTAG--------TT
DroYak_CAF1_left   ATATTTGCT--TTTCTTGTTTTGTCACTTTAAATTT-GATTACTCACCTGCATGCATAGATTACTCTTCAAATCCTCAT-TTGG--------TT
DroMoj_CAF1_left   ACTTACTCA-CCTGCTGGTCTT-CTCGCTATGCTCAATTGAAAGATCCAAGCGCAGTCTCTCGCCGATATGAAACCTGG-GAAC--------TG
DroVir_CAF1_left   GCAGATGTAACTTGCCTGTTCT-ACAGGTACGAACT-TTACTTTTGTAAATTGAAAGATCTAACCCAAGTCTTTG-GCA-GATA--------TG